2GD2	Isomerase	date	Mar 15, 2006
title	The 1,1-Proton Transfer Reaction Mechanism By Alpha-Methylac Racemase Is Catalyzed By An Aspartatehistidine Pair And In Smooth, Methionine-Rich Surface For Binding The Fatty Acyl
authors	P.Bhaumik, R.K.Wierenga
compound		source
Molecule: Probable Alpha-Methylacyl-Coa Racemase Mcr Chain: A, B, C, D Synonym: 2-Methylacyl-Coa Racemase, 2-Arylpropionyl-Coa Epi Ec: 5.1.99.4 Engineered: Yes		Organism_scientific: Mycobacterium Tuberculosis Organism_taxid: 1773 Gene: Cab09031 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3)Plyss Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet3a
symmetry	Space Group: C 1 2 1	R_factor 0.208 R_Free 0.250
crystal cell	length a length b length c angle alpha angle beta angle gamma 181.120 80.030 118.620 90.00 91.58 90.00
method	X-Ray Diffraction	resolution	1.70 Å
ligand	CAA, GOL	enzyme	Isomerase E.C.5.1.99.4 BRENDA
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	The Catalysis of the 1,1-Proton Transfer by alpha-Methyl-acyl-CoA Racemase Is Coupled to a Movement of the Fatty Acyl Moiety Over a Hydrophobic, Methionine-rich Surface., Bhaumik P, Schmitz W, Hassinen A, Hiltunen JK, Conzelmann E, Wierenga RK, J Mol Biol. 2007 Apr 6;367(4):1145-61. Epub 2007 Jan 27. PMID:17320106

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (253 Kb) [Save to disk] Biological Unit Coordinates (2gd2.pdb1.gz) 125 Kb Biological Unit Coordinates (2gd2.pdb2.gz) 125 Kb LPC: Ligand-Protein Contacts for 2GD2 CSU: Contacts of Structural Units for 2GD2 Likely Quarternary Molecular Structure file(s) for 2GD2 Structure Factors (2761 Kb) Retrieve 2GD2 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2GD2 from S2C, [Save to disk] Re-refined 2gd2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2GD2 in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 2GD2

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 2GD2, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1j2gd2, region D:159-312 [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2gd2_A] [2gd2_B] [2gd2] [2gd2_D] [2gd2_C] SWISS-PROT database: [O06543] Domain organization of [O06543_MYCTU] by SWISSPFAM

Other resources with information on 2GD2

Community annotation for 2GD2 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---